Showing : hypergeometric • reset
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Properly constructing a hypergeometric test
overrepresentation overlap R hypergeometric
updated 2.2 years ago by ★ 4.6k • written 2.2 years ago by ▴ 160
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Hypergeometric (gene set enrichment) test using "Categories" package
enrichment hypergeometric Categories
3.6 years ago josmantorres ▴ 10
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Answer: Feature Counts -R XS Read Assignment Tag by Gordon Smyth 52k
No, it is not featureCounts's job to change tags written by the aligner.
Comment: Margins for gene_set_enrichment_plot by Leonardo Collado Torres ★ 1.1k
Thanks! This one might be worth remaking with `ComplexHeatmap`. Similar to https://github.com/LieberInstitute/spatialLIBD/pull/91 that was …
Comment: DESeq2 - Comparing Comparisons by James W. MacDonald 67k
Full disclosure: I don't use `DESeq2`, and find the contrasts specification confusing. Because of that, I generally recommend using `result…
Comment: DESeq2 - Comparing Comparisons by sk • 0
Hi James, Thank you for your response! Quick follow-up; if I structure my contrast as below, will it perform (A-B) - (C-D)? res_diff <…
Comment: DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMe by txema.heredia • 0
You could check the reply I got to a similar issue here: https://support.bioconductor.org/p/9160134/ In short, DESeq2 uses by default `ind…
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Answer: Mapping Between GenBank ID's and Uniprot
Comment: What type of counts data to import for performing Isoform analysis in edgeR
A: Relations used in GO.db GOBPANCESTOR
Relations used in GO.db GOBPANCESTOR
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